Difference between revisions of "Part:BBa K3411020"
 
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<partinfo>BBa_K3411020 short</partinfo>
 
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Lambert iGEM’s novel NarP system BBa_K3411020 is also modeled after <i>E.coli’s</i> natural nitrite sensor in the NAR Operon. Similarly to NarL, the promoter BBa_J23106, a constitutive Anderson Promoter, produces TetR, which represses the PtetO promoter, producing NarP. By regulating the amount of aTc, the molecule that inhibits TetR, our lab can control NarP’s expression, the product of the PtetO promoter. NarQ, the native membrane-bound protein, senses the amount of nitrate and/or nitrite in the cell: In the presence of nitrite and/or nitrate, NarQ will phosphorylate NarP, activating it, but if there is no nitrite and/or nitrate present, NarQ will not phosphorylate NarP. If NarP is phosphorylated, it will activate the nirB promoter, producing GFP.
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===Native Nar Operon===
  
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Lambert iGEM plans on cloning and characterizing our NarP composite part in the coming year as a part of our two-year project, AgroSense.  
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[[Image:NativeNar.jpeg|thumb|center|500px|<i>Figure 1. The diagram above shows the native Nar membrane-bound sensor proteins and the corresponding DNA-binding response regulators in E. coli.</i>]]
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Native to <i>E. coli</i>, the Nar Operon regulates anaerobic gene expression in response to two electron acceptors: nitrate and nitrite. This system consists of two homologous membrane-bound sensor proteins (NarX and NarQ) as well as two homologous DNA-binding response regulators (NarL and NarP). NarL’s conjugate is the membrane-bound NarX protein while NarP’s conjugate is the membrane-bound NarQ protein. Lambert iGEM is utilizing this system to test nitrate and nitrite levels, NarL and NarP expression, and downstream GFP expression through mathematical models.
  
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===NarP Nitrate/Nitrite Biosensor Design===
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[[Image:NarPConstruct.png|thumb|center|500px|<i>Figure 2: Diagram of the nitrate/nitrite detection NarP system construct.</i>]]
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[[Image:_Nardiagram2.png|thumb|center|500px|<i>Figure 3: Diagram of the nitrate/nitrite detection NarP system signalling transduction pathway.</i>]]
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Lambert_GA iGEM 2020's novel NarP system, [https://parts.igem.org/Part:BBa_K3411020 BBa_K3411020], is also modeled after <i>E.coli</i>’s natural nitrite sensor in the NAR Operon. Because the NarL system ([https://parts.igem.org/Part:BBa_K1682018 BBa_K1682018]) detects nitrate, Lambert iGEM needed a method to detect levels of nitrite: NarP, which detects both nitrate and nitrite. By calculating the corrected difference, the system would have concentrations for both nutrients. Lambert iGEM’s novel NarP composite part BBa_K3411020 and the NarP gene BBa_K3411010 are also modeled after <i>E.coli’s</i> natural nitrite sensor. Similarly to NarL, the promoter BBa_J23106, a constitutive Anderson Promoter, produces TetR, which represses the PtetO promoter, producing NarP. By regulating the amount of aTc, the molecule that inhibits TetR, the lab can control NarP’s expression, the product of the PtetO promoter. NarQ, the native membrane-bound protein, senses the amount of nitrate and/or nitrite in the cell: in the presence of nitrite and/or nitrate, NarQ will phosphorylate NarP, activating it, but if there is no nitrite and/or nitrate present, NarQ will not phosphorylate NarP [1]. If NarP is phosphorylated, it will activate the nirB promoter, producing GFP [2]. Lambert iGEM plans to correlate GFP levels to nitrite through mathematical modeling.
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Lambert_GA iGEM 2020's plans on cloning and characterizing the NarP composite part in the coming year as a part of the two-year project, AgroSENSE.
 +
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===References===
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[1] Darwin A.J., & Stewart V. (1996) The NAR Modulon Systems: Nitrate and Nitrite Regulation of Anaerobic Gene Expression. In: Regulation of Gene Expression in Escherichia coli. Springer, Boston, MA. doi.org/10.1007/978-1-4684-8601-8_17
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[2] Wang H., & Gunsalus R. (2000). The nrfA and nirB Nitrite Reductase Operons in Escherichia coli Are Expressed Differently in Response to Nitrate than to Nitrite. Journal of Bacteriology, 182(20): 5813–5822. doi: 10.1128/jb.182.20.5813-5822.2000
  
 
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===Usage and Biology===
 
===Usage and Biology===
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K3411020 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K3411020 SequenceAndFeatures</partinfo>

Latest revision as of 09:28, 16 September 2021


NarP Nitrate/Nitrite Sensor

Native Nar Operon

Figure 1. The diagram above shows the native Nar membrane-bound sensor proteins and the corresponding DNA-binding response regulators in E. coli.

Native to E. coli, the Nar Operon regulates anaerobic gene expression in response to two electron acceptors: nitrate and nitrite. This system consists of two homologous membrane-bound sensor proteins (NarX and NarQ) as well as two homologous DNA-binding response regulators (NarL and NarP). NarL’s conjugate is the membrane-bound NarX protein while NarP’s conjugate is the membrane-bound NarQ protein. Lambert iGEM is utilizing this system to test nitrate and nitrite levels, NarL and NarP expression, and downstream GFP expression through mathematical models.

NarP Nitrate/Nitrite Biosensor Design

Figure 2: Diagram of the nitrate/nitrite detection NarP system construct.
Figure 3: Diagram of the nitrate/nitrite detection NarP system signalling transduction pathway.


Lambert_GA iGEM 2020's novel NarP system, BBa_K3411020, is also modeled after E.coli’s natural nitrite sensor in the NAR Operon. Because the NarL system (BBa_K1682018) detects nitrate, Lambert iGEM needed a method to detect levels of nitrite: NarP, which detects both nitrate and nitrite. By calculating the corrected difference, the system would have concentrations for both nutrients. Lambert iGEM’s novel NarP composite part BBa_K3411020 and the NarP gene BBa_K3411010 are also modeled after E.coli’s natural nitrite sensor. Similarly to NarL, the promoter BBa_J23106, a constitutive Anderson Promoter, produces TetR, which represses the PtetO promoter, producing NarP. By regulating the amount of aTc, the molecule that inhibits TetR, the lab can control NarP’s expression, the product of the PtetO promoter. NarQ, the native membrane-bound protein, senses the amount of nitrate and/or nitrite in the cell: in the presence of nitrite and/or nitrate, NarQ will phosphorylate NarP, activating it, but if there is no nitrite and/or nitrate present, NarQ will not phosphorylate NarP [1]. If NarP is phosphorylated, it will activate the nirB promoter, producing GFP [2]. Lambert iGEM plans to correlate GFP levels to nitrite through mathematical modeling.

Lambert_GA iGEM 2020's plans on cloning and characterizing the NarP composite part in the coming year as a part of the two-year project, AgroSENSE.

References

[1] Darwin A.J., & Stewart V. (1996) The NAR Modulon Systems: Nitrate and Nitrite Regulation of Anaerobic Gene Expression. In: Regulation of Gene Expression in Escherichia coli. Springer, Boston, MA. doi.org/10.1007/978-1-4684-8601-8_17

[2] Wang H., & Gunsalus R. (2000). The nrfA and nirB Nitrite Reductase Operons in Escherichia coli Are Expressed Differently in Response to Nitrate than to Nitrite. Journal of Bacteriology, 182(20): 5813–5822. doi: 10.1128/jb.182.20.5813-5822.2000


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 2000
    Illegal NheI site found at 2023
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 2727
    Illegal AgeI site found at 1371
  • 1000
    COMPATIBLE WITH RFC[1000]